|
| Status |
Public on Mar 16, 2023 |
| Title |
Smad3-KO neutrophils |
| Sample type |
SRA |
| |
|
| Source name |
LLC-transplanted tumor
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: LLC-transplanted tumor
cell type: neutrophils
age: 8-12 weeks
genotype: Smad3-deficient (Smad3-/-)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
CD11b+Ly6G TANs were FACS-sorted from the single-cell digestion of s.c LLC tumor inoculated in C57BL6 (wild-type) and Smad3-deficient (Smad3-/- ) mice and submitted for cell encapsulation and library construction by Chromium controller with 5’ expression kit (10x genomics).
Single-cell sequencing RNA libraries were prepared for sequencing using standard 10x Genomics single-cell droplet generation protocols and next-generation sequencing Illumina protocols
10x single-cell RNA-Seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Sequencing data were cleaned and processed using 10x CellRanger pipeline
Genome_build: mm10
Supplementary_files_format_and_content: csv files include normalized values for each sample and feature for clustering. CellRanger output files (in barcodes.tsv.gz, BC-1 corresponds to Smad3-KO neutrophils, BC-2 corresponds to Smad3-WT neutrophils)
|
| |
|
| Submission date |
Oct 25, 2021 |
| Last update date |
Mar 16, 2023 |
| Contact name |
Patrick Ming-Kuen Tang |
| E-mail(s) |
patrick.tang@cuhk.edu.hk
|
| Organization name |
The Chinese University of Hong Kong
|
| Street address |
Cancer center, Prince of Wales Hospital,30-32 Ngan Shing Street, Shatin
|
| City |
New Territories |
| ZIP/Postal code |
NA |
| Country |
Hong Kong |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE186530 |
10x Single-cell Sequencing for Smad3 wild-type and knockout neutrophils |
|
| Relations |
| BioSample |
SAMN22561455 |
| SRA |
SRX12770785 |
